[Biojava-l] Re: Splice Variants

[Matthew Pocock]

Hi Ranjan,

These interfaces were my fault. I went ahead and wrote them all one day 
after there had been some discussion on the list. The embl/genbank 
parsers don't construct these objects. I don't know if the ensembl 
bridge does either. Thomas?

Matthew

Ranjan.George wrote:

> 
> Hi All,
> 
> Am fairly new to this forum, but have been a regular reader of it and have
> been looking at BioJava for the past few months.
> 
> Our requirement is to display the possible Splice Variants of a Gene.  I
> have noticed that there is
> a SpliceVariant interface and also coupla other interfaces like Gene/Exon
> which all contribute to being
> Features of a Sequence.
> 
> However I don't see any of these actually being used when I do a features()
> on a Sequence.
> The iterator only returns me a SimpleStrandedFeature().  Am I missing
> something or is the Feature Hierarchy still at an early stage and is just
> evolving?
> 
> 
> 
> Regards,
> 
> Ranjan George
> i labs SAGA Bio-informatics
> Phone : 91-040-3352900/2 Ext.1006
> Fax     : 91-040-3351522
> Email  : ranjan_george@i-labs.ws
> http://www.i-labs.ws
> 
> 
>